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Structure of a de novo designed Interleukin-2/Interleukin-15 mimetic complex with IL-2Rb and IL-2Rg
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2B5I
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 0.091 M Tris pH 7.5
8 mM imidazole pH 8.0
4.2% DEXTRAN SULFATE
50 mM sodium citrate
2.2 M ammonium sulfate
Crystal Properties Matthews coefficient Solvent content 3.15 60.97
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 65.125 α = 90 b = 67.914 β = 90 c = 172.084 γ = 90
Symmetry Space Group P 21 2 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS PILATUS3 6M 2018-01-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 5.0.1 1.0332 ALS 5.0.1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 2.516 47.005 100 0.461 0.488 0.158 0.983 5.6 9.3 17512 38.2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.516 2.828 9 2.516 5.756 0.78 0.445 11.22
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2b5i 2.516 47.005 1.33 13924 1366 52.24 0.2256 0.2211 0.2209 0.2659 0.2658 47.0455
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3]
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3949 Nucleic Acid Atoms Solvent Atoms 13 Heterogen Atoms 138
Software Software Software Name Purpose XDS data reduction Aimless data scaling PHASER phasing PHENIX refinement BUSTER refinement PDB_EXTRACT data extraction